Pierre R Bushel

EPIG-Seq for identifying co-expressed genes from RNA-Seq data

• BMC Genomics
• March 2016

Abstract 1972: LIN28 gene targets are key mediators of breast cancer disease processes

• Cancer Research
• August 2015

LIN28A modulates splicing and gene expression programs in breast cancer cells

• Molecular and Cellular Biology
• July 2015

Technical guide for applications of gene expression profiling in human health risk asse...

• Regulatory Toxicology and Pharmacology
• July 2015

Toxicogenomics profiling of bone marrow from rats treated with topotecan in combination...

• Frontiers in Genetics
• February 2015

Novel Roles for Notch3 and Notch4 Receptors in Gene Expression and Susceptibility to Oz...

• Environmental Health Perspectives
• February 2015

Development of Phenotypic and Transcriptional Biomarkers to Evaluate Relative Activity ...

• Environmental Health Perspectives
• January 2015

The rat microRNA body atlas: Towards understanding serum microRNA changes and their uti...

• Toxicology Letters
• September 2014

The concordance between RNA-seq and microarray data depends on chemical treatment and t...

• Nature Biotechnology
• August 2014

Dynamic expression of 3′ UTRs revealed by Poisson hidden Markov modeling of RNA-Seq: Im...

• Gene
• September 2013

Improved Sparse Multi-Class SVM and Its Application for Gene Selection in Cancer Classi...

• Cancer Informatics
• August 2013

Gene Expression in Uterine Leiomyoma from Tumors Likely to Be Growing (from Black Women...

• PLoS ONE
• June 2013

p53 integrates host defense and cell fate during bacterial pneumonia

• The Journal of Cell Biology
• May 2013

p53 integrates host defense and cell fate during bacterial pneumonia

• The Journal of Experimental Medicine
• April 2013

Widespread Exonization of Transposable Elements in Human Coding Sequences is Associated...

• Transcriptomics Open Access
• January 2013

Decision tree-based method for integrating gene expression, demographic, and clinical d...

• BMC Systems Biology
• January 2013

Transcriptional responses to loss of RNase H2 in Saccharomyces cerevisiae

• DNA Repair
• December 2012

Sources of variance in baseline gene expression in the rodent liver

• Mutation Research/Genetic Toxicology and Environmental Mutagenesis
• August 2012

Research Resource: Whole-Genome Estrogen Receptor α Binding in Mouse Uterine Tissue Rev...

• Molecular Endocrinology
• May 2012

Population Differences in Transcript-Regulator Expression Quantitative Trait Loci

• PLoS ONE
• March 2012

The Impact of Classification of Interest on Predictive Toxicogenomics

• Frontiers in Genetics
• January 2012

Identification of Identical Transcript Changes in Liver and Whole Blood during Acetamin...

• Frontiers in Genetics
• January 2012

Maximizing biomarker discovery by minimizing gene signatures

• BMC Genomics
• January 2011

The Evolution of Bioinformatics in Toxicology: Advancing Toxicogenomics

• Toxicological Sciences
• December 2010

Development of gut microbiota in infants not exposed to medical interventions

• Apmis
• October 2010

CLUSTERING OF GENE EXPRESSION DATA AND END-POINT MEASUREMENTS BY SIMULATED ANNEALING

• Journal of Bioinformatics and Computational Biology
• February 2009

Proceedings of the First International Conference on Toxicogenomics Integrated with Env...

• BMC Proceedings
• January 2009

Discernment of possible mechanisms of hepatotoxicity via biological processes over-repr...

• BMC Genomics
• January 2009

Dissecting the fission yeast regulatory network reveals phase-specific control elements...

• BMC Systems Biology
• January 2009

Global Transcriptome and Deletome Profiles of Yeast Exposed to Transition Metals

• PLoS Genetics
• April 2008

Genes related to apoptosis predict necrosis of the liver as a phenotype observed in rat...

• BMC Genomics
• January 2008

Sources of variation in baseline gene expression levels from toxicogenomics study contr...

• BMC Genomics
• January 2008

Gene expression response in target organ and whole blood varies as a function of target...

• Genome Biology
• January 2008

Identification of Primary Transcriptional Regulation of Cell Cycle-Regulated Genes upon...

• Cell Cycle
• April 2007

Simultaneous clustering of gene expression data with clinical chemistry and pathologica...

• BMC Systems Biology
• January 2007

Extracting gene expression patterns and identifying co-expressed genes from microarray ...

• BMC Bioinformatics
• January 2007

Toxicogenomics

• March 2006

Profiles of Global Gene Expression in Ionizing-Radiation–Damaged Human Diploid Fibrobla...

• Environmental Health Perspectives
• December 2005

PAGE: phase-shifted analysis of gene expression

• Bioinformatics
• December 2005

The Chemical Effects in Biological Systems (CEBS) Knowledge Base

• May 2005

SYSTEMATIC VARIATION NORMALIZATION IN MICROARRAY DATA TO GET GENE EXPRESSION COMPARISON...

• Journal of Bioinformatics and Computational Biology
• April 2005

Databases for Toxicogenomics

• January 2005

Integration of clinical and gene expression endpoints to explore furan-mediated hepatot...

• Mutation Research/Fundamental and Molecular Mechanisms of Mutagenesis
• May 2004

Database Development in Toxicogenomics: Issues and Efforts

• Environmental Health Perspectives
• January 2004

DATABASE DEVELOPMENT IN TOXICOGENOMICS: ISSUES AND EFFORTS

• Environmental Health Perspectives
• January 2004

ATM-Dependent and -Independent Gene Expression Changes in Response to Oxidative Stress,...

• Radiation Research
• September 2003

Identification of distinct and common gene expression changes after oxidative stress an...

• Molecular Carcinogenesis
• June 2003

Genomic interrogation of mechanism(s) underlying cellular responses to toxicants

• Toxicology
• December 2002

Systems Toxicology and the Chemical Effects in Biological Systems (CEBS) Knowledge Base

• Environmental Health Perspectives
• November 2002

Alterations in apoptotic signaling in human idiopathic cardiomyopathic hearts in failure

• AJP Heart and Circulatory Physiology
• September 2002

Methapyrilene Toxicity: Anchorage of Pathologic Observations to Gene Expression Alterat...

• Toxicologic Pathology
• July 2002

Gene expression pattern recognition algorithm inferences to classify samples exposed to...

• June 2002

Regulation of DNA Replication Fork Genes by 17β-Estradiol

• Molecular Endocrinology
• June 2002

Computational selection of distinct class- and subclass-specific gene expression signat...

• Journal of Biomedical Informatics
• June 2002

Methapyrilene Toxicity: Anchorage of Pathologic Observations to Gene Expression Alterat...

• Toxicologic Pathology
• June 2002

Systems Toxicology and the Chemical Effects in Biological Systems (CEBS) Knowledge Base

• Environmental Health Perspectives
• January 2002

Assessing Gene Significance from cDNA Microarray Expression Data via Mixed Models

• Journal of Computational Biology
• November 2001

Progress in the Application of DNA Microarrays

• Environmental Health Perspectives
• September 2001

Progress in the Application of DNA Microarrays

• Environmental Health Perspectives
• August 2001

Combination of functional genomics approaches and microarray analyses to define candida...

• Nature Genetics
• April 2001

ATM-dependent responses to DNA-damaging agents

• Nature Genetics
• April 2001

Discovery in toxicology: Mediation by gene expression array technology

• Journal of Biochemical and Molecular Toxicology
• January 2001

Discovery in toxicology: Mediation by gene expression array technology

• Journal of Biochemical and Molecular Toxicology
• January 2001

Principal Variance Components Analysis: Estimating Batch Effects in Microarray Gene Exp...